Alternatives and similar repositories for systemsgenetics:

Users that are interested in systemsgenetics are comparing it to the libraries listed below

• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆212Updated 9 months ago
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆137Updated 3 years ago
• broadinstitute / tensorqtl
  Ultrafast GPU-enabled QTL mapper
  ☆173Updated 2 weeks ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆176Updated this week
• weizhouUMICH / SAIGE
  ☆193Updated 2 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆94Updated 3 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆190Updated last year
• PMBio / peer
  A factor analysis package
  ☆99Updated 12 years ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆140Updated last year
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆146Updated 4 years ago
• gusevlab / fusion_twas
  methods for functional summary-based imputation
  ☆79Updated 2 years ago
• UMCUGenetics / MutationalPatterns
  R package for extracting and visualizing mutational patterns in base substitution catalogues
  ☆106Updated 2 years ago
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆220Updated last week
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• stephenturner / annotables
  R data package for annotating/converting Gene IDs
  ☆163Updated 2 years ago
• konradjk / loftee
  ☆174Updated last year
• mikegloudemans / gwas-download
  Easily download publicly available GWAS summary statistics.
  ☆75Updated last year
• ENCODE-DCC / rna-seq-pipeline
  ☆147Updated 2 years ago
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆147Updated 2 years ago
• limix / limix
  Linear mixed model for genomic analyses.
  ☆104Updated 3 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 4 years ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆109Updated 6 years ago
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆307Updated last year
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆140Updated last year
• mskcc / facets
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
  ☆150Updated last year
• zhxiaokang / RASflow
  RNA-Seq analysis workflow
  ☆104Updated 3 years ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆117Updated last year
• omerwe / polyfun
  PolyFun (POLYgenic FUNctionally-informed fine-mapping)
  ☆104Updated 3 months ago
• statgen / pheweb
  A tool to build a website to browse hundreds or thousands of GWAS.
  ☆169Updated 7 months ago